-
1
-
-
78651594532
-
-
Springer, Berlin-Heidelberg
-
Gorban A., Kégl B., Wunch D., Zinovyev A. Principal Manifolds for Data Visualization and Dimension Reduction, Lecture Notes in Computational Science and Engineering 2008, Springer, Berlin-Heidelberg.
-
(2008)
Principal Manifolds for Data Visualization and Dimension Reduction, Lecture Notes in Computational Science and Engineering
-
-
Gorban, A.1
Kégl, B.2
Wunch, D.3
Zinovyev, A.4
-
3
-
-
0028416938
-
Independent component analysis, a new concept?
-
Comon P. Independent component analysis, a new concept?. Signal Process. 1994, 36:287-314.
-
(1994)
Signal Process.
, vol.36
, pp. 287-314
-
-
Comon, P.1
-
5
-
-
0028561099
-
Positive matrix factorization: a non-negative factor model with optimal utilization of error estimates of data values
-
Paatero P., Tapper U. Positive matrix factorization: a non-negative factor model with optimal utilization of error estimates of data values. Environmetrics 1994, 5:111-126.
-
(1994)
Environmetrics
, vol.5
, pp. 111-126
-
-
Paatero, P.1
Tapper, U.2
-
6
-
-
0033592606
-
Learning the parts of objects by nonnegative matrix factorization
-
Lee D.D., Seung H.S. Learning the parts of objects by nonnegative matrix factorization. Nature 1999, 401:788-791.
-
(1999)
Nature
, vol.401
, pp. 788-791
-
-
Lee, D.D.1
Seung, H.S.2
-
7
-
-
0032441150
-
Cluster analysis and display of genome-wide expression patterns
-
Eisen M.B., Spellman P.T., Brown P.O., Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA 1998, 95:14863-14868.
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, pp. 14863-14868
-
-
Eisen, M.B.1
Spellman, P.T.2
Brown, P.O.3
Botstein, D.4
-
8
-
-
25444456184
-
Blind gene classification-an application of a signal separation method
-
Hori G., Inoue M., Nishimura S.I., Nakahara H. Blind gene classification-an application of a signal separation method. Genome Inf. 2001, 12:255-256.
-
(2001)
Genome Inf.
, vol.12
, pp. 255-256
-
-
Hori, G.1
Inoue, M.2
Nishimura, S.I.3
Nakahara, H.4
-
9
-
-
0037810449
-
Subsystem identification through dimensionality reduction of large-scale gene expression data
-
Kim P., Tidor B. Subsystem identification through dimensionality reduction of large-scale gene expression data. Genome Res. 2003, 13:1706-1718.
-
(2003)
Genome Res.
, vol.13
, pp. 1706-1718
-
-
Kim, P.1
Tidor, B.2
-
10
-
-
1642529511
-
Metagenes and molecular pattern discovery using matrix factorization
-
Brunet J.P., Tamayo P., Golub T.R., Mesirov J.P. Metagenes and molecular pattern discovery using matrix factorization. Proc. Natl. Acad. Sci. USA 2004, 101(12):4164-4169.
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, Issue.12
, pp. 4164-4169
-
-
Brunet, J.P.1
Tamayo, P.2
Golub, T.R.3
Mesirov, J.P.4
-
11
-
-
57349130111
-
A review of independent component analysis application to microarray gene expression data
-
Kong W., Vanderburg C.R., Gunshin H., Rogers J.T., Huang X. A review of independent component analysis application to microarray gene expression data. Biotechniques 2008, 45(5):501-520.
-
(2008)
Biotechniques
, vol.45
, Issue.5
, pp. 501-520
-
-
Kong, W.1
Vanderburg, C.R.2
Gunshin, H.3
Rogers, J.T.4
Huang, X.5
-
12
-
-
48249151183
-
Nonnegative matrix factorization: an analytical and interpretive tool in computational biology
-
Devarajan K. Nonnegative matrix factorization: an analytical and interpretive tool in computational biology. PLoS Comput. Biol. 2008, 4(7).
-
(2008)
PLoS Comput. Biol.
, vol.4
, Issue.7
-
-
Devarajan, K.1
-
13
-
-
77951273857
-
Matrix factorization methods applied in microarray data analysis
-
Kossenkov A.V., Ochs M.F. Matrix factorization methods applied in microarray data analysis. Int. J. Data Min. Bioinf. 2010, 4(1):72-90.
-
(2010)
Int. J. Data Min. Bioinf.
, vol.4
, Issue.1
, pp. 72-90
-
-
Kossenkov, A.V.1
Ochs, M.F.2
-
14
-
-
84864054608
-
Comprehensive evaluation of matrix factorization methods for the analysis of DNA microarray gene expression data
-
Kim M.H., Seo H.J., Joung J.G., Kim J.H. Comprehensive evaluation of matrix factorization methods for the analysis of DNA microarray gene expression data. BMC Bioinformatics 2011, 12(Suppl. 13):S8.
-
(2011)
BMC Bioinformatics
, vol.12
, Issue.SUPPL. 13
-
-
Kim, M.H.1
Seo, H.J.2
Joung, J.G.3
Kim, J.H.4
-
15
-
-
0036166753
-
Linear modes of gene expression determined by independent component analysis
-
Liebermeister W. Linear modes of gene expression determined by independent component analysis. Bioinformatics 2002, 18(1):51-60.
-
(2002)
Bioinformatics
, vol.18
, Issue.1
, pp. 51-60
-
-
Liebermeister, W.1
-
16
-
-
4444229045
-
Independent component analysis of microarray data in the study of endometrial cancer
-
Saidi S.A., Holland C.M., Kreil D.P., MacKay D.J., Charnock-Jones D.S., Print C.G., Smith S.K. Independent component analysis of microarray data in the study of endometrial cancer. Oncogene 2004, 23(39):6677-6683.
-
(2004)
Oncogene
, vol.23
, Issue.39
, pp. 6677-6683
-
-
Saidi, S.A.1
Holland, C.M.2
Kreil, D.P.3
MacKay, D.J.4
Charnock-Jones, D.S.5
Print, C.G.6
Smith, S.K.7
-
17
-
-
1542473171
-
Application of independent component analysis to microarrays
-
Lee S.I., Batzoglou S. Application of independent component analysis to microarrays. Genome Biol. 2003, 4(11):R76.
-
(2003)
Genome Biol.
, vol.4
, Issue.11
-
-
Lee, S.I.1
Batzoglou, S.2
-
18
-
-
27744601822
-
Improving molecular cancer class discovery through sparse non-negative matrix factorization
-
Gao Y., Church G. Improving molecular cancer class discovery through sparse non-negative matrix factorization. Bioinformatics 2005, 21(21):3970-3975.
-
(2005)
Bioinformatics
, vol.21
, Issue.21
, pp. 3970-3975
-
-
Gao, Y.1
Church, G.2
-
19
-
-
33747865502
-
Independent component analysis-based penalized discriminant method for tumor classification using gene expression data
-
Huang D., Zheng C. Independent component analysis-based penalized discriminant method for tumor classification using gene expression data. Bioinformatics 2006, 22(15):1855.
-
(2006)
Bioinformatics
, vol.22
, Issue.15
, pp. 1855
-
-
Huang, D.1
Zheng, C.2
-
20
-
-
30744439853
-
Molecular diagnosis of human cancer type by gene expression profiles and independent component analysis
-
Zhang X.W., Yap Y.L., Wei D., Chen F., Danchin A. Molecular diagnosis of human cancer type by gene expression profiles and independent component analysis. Eur. J. Hum. Genet. 2005, 13(12):1303-1311.
-
(2005)
Eur. J. Hum. Genet.
, vol.13
, Issue.12
, pp. 1303-1311
-
-
Zhang, X.W.1
Yap, Y.L.2
Wei, D.3
Chen, F.4
Danchin, A.5
-
21
-
-
54349122465
-
Gene expression data classification using consensus independent component analysis
-
Zheng C., Huang D., Kong X., Zhao X. Gene expression data classification using consensus independent component analysis. Genomics Proteomics Bioinformatics 2008, 6(2):74-82.
-
(2008)
Genomics Proteomics Bioinformatics
, vol.6
, Issue.2
, pp. 74-82
-
-
Zheng, C.1
Huang, D.2
Kong, X.3
Zhao, X.4
-
22
-
-
77956873627
-
Tackling the widespread and critical impact of batch effects in high-throughput data
-
Leek J.T., Scharpf R.B., Bravo H.C., Simcha D., Langmead B., Johnson W.E., Geman D., Baggerly K., Irizarry R.A. Tackling the widespread and critical impact of batch effects in high-throughput data. Nature Reviews 2010, 11(10):733-739.
-
(2010)
Nature Reviews
, vol.11
, Issue.10
, pp. 733-739
-
-
Leek, J.T.1
Scharpf, R.B.2
Bravo, H.C.3
Simcha, D.4
Langmead, B.5
Johnson, W.E.6
Geman, D.7
Baggerly, K.8
Irizarry, R.A.9
-
23
-
-
33751110185
-
Partially-independent component analysis for tissue heterogeneity correction in microarray gene expression analysis
-
Y. Wang, J.Y. Zhang, J. Khan, R. Clarke, Z.P. Gu, Partially-independent component analysis for tissue heterogeneity correction in microarray gene expression analysis, 2003 IEEE 13th Workshop on Neural Networks for Signal Processing, 2003, pp. 23-32.
-
(2003)
2003 IEEE 13th Workshop on Neural Networks for Signal Processing
, pp. 23-32
-
-
Wang, Y.1
Zhang, J.Y.2
Khan, J.3
Clarke, R.4
Gu, Z.P.5
-
24
-
-
12244298864
-
A decomposition model to track gene expression signatures: preview on observer-independent classification of ovarian cancer
-
Martoglio A.M., Miskin J.W., Smith S.K., MacKay D.J. A decomposition model to track gene expression signatures: preview on observer-independent classification of ovarian cancer. Bioinformatics 2002, 18(12):1617-1624.
-
(2002)
Bioinformatics
, vol.18
, Issue.12
, pp. 1617-1624
-
-
Martoglio, A.M.1
Miskin, J.W.2
Smith, S.K.3
MacKay, D.J.4
-
25
-
-
79957851822
-
Independent surrogate variable analysis to deconvolve confounding factors in large-scale microarray profiling studies
-
Teschendorff A.E., Zhuang J., Widschwendter M. Independent surrogate variable analysis to deconvolve confounding factors in large-scale microarray profiling studies. Bioinformatics 2011, 27:1496-1505.
-
(2011)
Bioinformatics
, vol.27
, pp. 1496-1505
-
-
Teschendorff, A.E.1
Zhuang, J.2
Widschwendter, M.3
-
26
-
-
3042687617
-
Studying DNA microarray data using independent component analysis
-
J.A. Berger, S.K. Mitra, H. Edgren, Studying DNA microarray data using independent component analysis, in: Proceedings of the 2004 First International Symposium on Control, Communications and Signal Processing, 2004, pp. 747-750.
-
(2004)
Proceedings of the 2004 First International Symposium on Control, Communications and Signal Processing
, pp. 747-750
-
-
Berger, J.A.1
Mitra, S.K.2
Edgren, H.3
-
27
-
-
12844264782
-
Blind source separation and the analysis of microarray data
-
Chiappetta P., Roubaud M.C., Torrésani B. Blind source separation and the analysis of microarray data. J. Comput. Biol. 2004, 11:1090-1109.
-
(2004)
J. Comput. Biol.
, vol.11
, pp. 1090-1109
-
-
Chiappetta, P.1
Roubaud, M.C.2
Torrésani, B.3
-
28
-
-
34548444625
-
Elucidating the altered transcriptional programs in breast cancer using independent component analysis
-
Teschendorff A., Journée M., Absil P., Sepulchre R., Caldas C. Elucidating the altered transcriptional programs in breast cancer using independent component analysis. PLoS Comput. Biol. 2007, 3(8):e161.
-
(2007)
PLoS Comput. Biol.
, vol.3
, Issue.8
-
-
Teschendorff, A.1
Journée, M.2
Absil, P.3
Sepulchre, R.4
Caldas, C.5
-
29
-
-
33748201591
-
Independent component analysis reveals new and biologically significant structures in microarray data
-
Frigyesi A., Veerla S., Lindgren D., Höglund M. Independent component analysis reveals new and biologically significant structures in microarray data. BMC Bioinformatics 2006, 7:290.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 290
-
-
Frigyesi, A.1
Veerla, S.2
Lindgren, D.3
Höglund, M.4
-
30
-
-
78649334862
-
Independent component analysis: mining microarray data for fundamental human gene expression modules
-
Engreitz J., Daigle B., Marshall J., Altman R. Independent component analysis: mining microarray data for fundamental human gene expression modules. J. Biomed. Inform. 2010, 43:932-944.
-
(2010)
J. Biomed. Inform.
, vol.43
, pp. 932-944
-
-
Engreitz, J.1
Daigle, B.2
Marshall, J.3
Altman, R.4
-
31
-
-
57649174930
-
How to extract marker genes from microarray data sets
-
R. Schachtner, D. Lutter, F.J. Theis, E.W. Lang, G. Schmitz, A.M. Tomé, Vilda P. Gómez, How to extract marker genes from microarray data sets, in: Proceedings of the 29th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2007, pp. 4215-4218.
-
(2007)
Proceedings of the 29th Annual International Conference of the IEEE Engineering in Medicine and Biology Society
, pp. 4215-4218
-
-
Schachtner, R.1
Lutter, D.2
Theis, F.J.3
Lang, E.W.4
Schmitz, G.5
Tomé, A.M.6
Gómez, V.P.7
-
32
-
-
0034568109
-
'Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns
-
RESEARCH0003
-
Hastie T., Tibshirani R., Eisen M.B., Alizadeh A., Levy R., Staudt L., Chan W.C., Botstein D., Brown P. 'Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns. Genome Biol. 2000, 1(2). RESEARCH0003.
-
(2000)
Genome Biol.
, vol.1
, Issue.2
-
-
Hastie, T.1
Tibshirani, R.2
Eisen, M.B.3
Alizadeh, A.4
Levy, R.5
Staudt, L.6
Chan, W.C.7
Botstein, D.8
Brown, P.9
-
33
-
-
80052914729
-
Integrated analysis of gene expression and copy number data on gene shaving using independent component analysis
-
Sheng J., Deng H.W., Calhoun V.D., Wang Y.P. Integrated analysis of gene expression and copy number data on gene shaving using independent component analysis. IEEE/ACM Trans. Comput. Biol. Bioinf. 2011, 8(6):1568-1579.
-
(2011)
IEEE/ACM Trans. Comput. Biol. Bioinf.
, vol.8
, Issue.6
, pp. 1568-1579
-
-
Sheng, J.1
Deng, H.W.2
Calhoun, V.D.3
Wang, Y.P.4
-
34
-
-
55249097170
-
Knowledge-guided multi-scale independent component analysis for biomarker identification
-
Chen L., Xuan J., Wang C., Shih I., Wang Y., Zhang Z., et al. Knowledge-guided multi-scale independent component analysis for biomarker identification. BMC Bioinformatics 2008, 9:416.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 416
-
-
Chen, L.1
Xuan, J.2
Wang, C.3
Shih, I.4
Wang, Y.5
Zhang, Z.6
-
35
-
-
79951547829
-
Multi-resolution independent component analysis for high-performance tumor classification and biomarker discovery
-
Han H., Li X.L. Multi-resolution independent component analysis for high-performance tumor classification and biomarker discovery. BMC Bioinformatics 2011, 12(Suppl. 1):S7.
-
(2011)
BMC Bioinformatics
, vol.12
, Issue.SUPPL. 1
-
-
Han, H.1
Li, X.L.2
-
36
-
-
10044265467
-
Independent component analysis and scoring function based on protein interactions
-
K. Najarian, A. Kedar, R. Paleru, A. Darvish, R.H. Zadeh, Independent component analysis and scoring function based on protein interactions, in: Proceedings of the 2004 Second International IEEE Conference on Intelligent Systems, 2004, pp. 595-599.
-
(2004)
Proceedings of the 2004 Second International IEEE Conference on Intelligent Systems
, pp. 595-599
-
-
Najarian, K.1
Kedar, A.2
Paleru, R.3
Darvish, A.4
Zadeh, R.H.5
-
37
-
-
0034069495
-
Gene ontology: tool for the unification of biology
-
Ashburner M., Ball C.A., Blake J.A., Botstein D., Butler H., Cherry J.M., Davis A.P., Dolinski K., Dwight S.S., Eppig J.T., Harris M.A., Hill D.P., Issel-Tarver L., Kasarskis A., Lewis S., Matese J.C., Richardson J.E., Ringwald M., Rubin G.M., Sherlock G. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium, Nat. Genet. 2000, 25(1):25-29.
-
(2000)
The Gene Ontology Consortium, Nat. Genet.
, vol.25
, Issue.1
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Harris, M.A.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
more..
-
38
-
-
27344435774
-
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian A., Tamayo P., Mootha V.K., Mukherjee S., Ebert B.L., Gillette M.A., Paulovich A., Pomeroy S.L., Golub T.R., Lander E.S., Mesirov J.P. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl. Acad. Sci. USA 2005, 102(43):15545-15550.
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, Issue.43
, pp. 15545-15550
-
-
Subramanian, A.1
Tamayo, P.2
Mootha, V.K.3
Mukherjee, S.4
Ebert, B.L.5
Gillette, M.A.6
Paulovich, A.7
Pomeroy, S.L.8
Golub, T.R.9
Lander, E.S.10
Mesirov, J.P.11
-
39
-
-
84872486666
-
Network analysis of gene lists for finding reproducible prognostic breast cancer gene signatures
-
Kairov U., Karpenyuk T., Ramanculov E., Zinovyev A. Network analysis of gene lists for finding reproducible prognostic breast cancer gene signatures. Bioinformation 2012, 18(6):773-776.
-
(2012)
Bioinformation
, vol.18
, Issue.6
, pp. 773-776
-
-
Kairov, U.1
Karpenyuk, T.2
Ramanculov, E.3
Zinovyev, A.4
|